ARACNE Minet R studio

Question

[ashtay]

Hello, I am very new to using R. I am trying to run aracne with RNA-seq data but I am unsure what format and file the data should be. Does anyone have any examples I could go off of and/or any script for running aracne using minet on R?

[andres.firrincieli]

I have no experience with the minet package and I could not find any tutorial online but, the aracne function need a mutual information matrix (mim) which can be obtained with the build.mim function:

data(syn.data)
mim <- build.mim(syn.data,estimator="spearman") # syn.data is a data.frame containing gene expression data where columns contain genes and rows contain samples.
net <- aracne(mim)